title: Apolipoprotein B-100: conservation of lipid-associating amphipathic secondary structural motifs in nine species of vertebrates.
abstract: Development of a computer program called LOCATE allowed us to show that human apolipoprotein B-100 is composed of five domains, NH2-alpha1-beta1-alpha2-beta2-alpha3-COOH, enriched, alternately, in amphipathic alpha helixes and amphipathic beta strands. Using updated versions of this program, here we compare the complete sequence of human apolipoprotein B-100 with partial sequences from eight additional species of vertebrates (chicken, frog, hamster, monkey, mouse, pig, rat, and rabbit). The lipid-associating amphipathic alpha helixes cluster in domains alpha2 (between residues 2075 +/- 25 and 2575 +/- 25) and alpha3 (between residues 4100 +/- 100 and 4550 +/- 50) in all species for which those regions have been sequenced but with little conservation of individual helixes. Lipid-associating amphipathic beta strands cluster in domains beta1 (approximately residues 827-2000) and beta2 (approximately residue 2571 to residue 4000 +/- 50) in all species for which these regions have been sequenced, with conservation of several individual amphipathic beta strands. Hydrophobic segments are present in apolipoprotein B-100 sequences of all nine species but the frequency of occurrence is no greater than generally found in beta sheet-containing proteins. We conclude that four alternating lipid-associating domains, -beta1-alpha2-beta2-alpha3-COOH, are common supramolecular features of apolipoprotein B-100 in nine vertebrate species.
authors.affiliation: Department of Medicine, UAB Medical Center, Birmingham, AL 35294-0012, USA.
authors.forename: J P
authors.initials: JP
authors.lastname: Segrest
authors.forename: M K
authors.initials: MK
authors.lastname: Jones
authors.forename: V K
authors.initials: VK
authors.lastname: Mishra
authors.forename: V
authors.initials: V
authors.lastname: Pierotti
authors.forename: S H
authors.initials: SH
authors.lastname: Young
authors.forename: J
authors.initials: J
authors.lastname: Borén
authors.forename: T L
authors.initials: TL
authors.lastname: Innerarity
authors.forename: N
authors.initials: N
authors.lastname: Dashti
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001001:Anura; D053299:Apolipoprotein B-100; D001055:Apolipoproteins B / Q000737:chemistry* / Q000378:metabolism; D001665:Binding Sites; D002645:Chickens; D006224:Cricetinae; D000882:Haplorhini; D006801:Humans; D050356:Lipid Metabolism; D051379:Mice; D017433:Protein Structure, Secondary; D011817:Rabbits; D051381:Rats; D011973:Receptors, LDL / Q000378:metabolism; D016415:Sequence Alignment; D012984:Software; D013552:Swine
chemical_list: D053299:Apolipoprotein B-100; D001055:Apolipoproteins B; D011973:Receptors, LDL